First Complete Genome Sequence of Clostridium sporogenes DSM 795 ^T , a Nontoxigenic Surrogate for Clostridium botulinum, Determined Using PacBio Single-Molecule Real-Time Technology

Abstract

The first complete genome sequence of Clostridium sporogenes DSM 795T, a nontoxigenic surrogate for Clostridium botulinum, was determined in a single contig using the PacBio single-molecule real-time technology. The genome (4,142,990 bp; G+C content, 27.98%) included 86 sets of >1,000-bp identical sequence pairs and 380 tandem repeats.

Diversity of the Genomes and Neurotoxins of Strains of Clostridium botulinum Group I and Clostridium sporogenes Associated with Foodborne, Infant and Wound Botulism

“…C. botulinum Group I is one of four distinct groups within the species C. botulinum , a polyphyletic taxon united only by the ability to form the highly potent botulinum neurotoxin [ 1 , 2 , 3 , 4 , 5 ]. C. sporogenes has often been perceived as a non-toxic close relative of C. botulinum Group I [ 6 , 7 , 8 , 9 , 10 , 11 , 12 , 13 ]. It is an important cause of food spoilage [ 14 , 15 , 16 ], and used as a surrogate for C. botulinum Group I in food sterilisation tests [ 7 , 14 , 15 , 17 , 18 , 19 , 20 ].…”

Recombinant expression and characterisation of the oxygen-sensitive 2-enoate reductase from Clostridium sporogenes

“…Preliminary attempts to purify the nitroalkene reductase directly from C. sporogenes by conventional chromatography indicated the presence of more than one enzyme reducing (E) -2-nitro-1-phenylpropene (unpublished results). Furthermore, the analysis of genome sequences of C. botulinum ATCC 3502, C. sporogenes ATCC 15579 and recently published genomes of C. sporogenes NCIMB 10696 [ 39 ] and C. sporogenes DSM 795 [ 40 ] revealed the presence of an open reading frame showing features characteristic for OYE-like reductases ( Fig. 1 ; CLOSPO_03444).…”

Advantages of genome sequencing by long-read sequencer using SMRT technology in medical area

“…We have sequenced a large number of genomes using PacBio RS II and published many scientific publications with collaborators in Okinawa genome projects in a wide variety of area including medical area. For viral and prokaryotic genomes, we determined all eight RNA segments of influenza A virus as full-length sequences (data not published), 21 complete bacterial genomic sequences, and 2 entire bacterial biosynthetic gene clusters [ 17 – 21 , 30 – 34 , 36 , 41 – 44 ]. For eukaryotic genomes, we constructed almost-complete (totally 95% of 540 Mb in 11 chromosomes) genome sequences of azuki bean [ 37 ].…”

“…enterica serovar Typhimurium strain ATCC 13311PacBioChromosome4,793,29952.205420-bp identical sequence pairCP0091022014 [41]Plasmid38,45740.70CP009103 Staphylococcus aureus subsp. aureus Rosenbach 1884 (DSM 20231 T )PacBioChromosome2,755,07232.8629 sets of >1000-bp identical sequence pairs (,063-bp maximum), tandem repeats (384 bp × 5 copies)CP0115262015 [42]Plasmid27,49030.69CP011527 Pseudomonas aeruginosa DSM 50071 T PacBioChromosome6,317,05066.525288-bp identical pair, 183 tandem repeats (246 bp × 20.7 copies)CP0120012015 [43] Clostridium sporogenes DSM 795 T PacBioChromosome4,142,99027.9886 sets of >1000-bp identical sequence pairs (4911-bp maximum), 380 tandem repeats (369 bp × 8.5 copies maximum), variable number tandem repeatCP0116632015 [44]CM-SJS/TEN-associated IKZF1 SNPs region of Japanese reference, Japanese SJS, and healthy subjectsPacBioTargeted long ampliconData not publishedData not publishedTargeted region (17 kb) of diploid genomeData not publishedThis article …”

“…A single circular contig representing a chromosome was obtained (4,142,990 bp; average GC content, 27.98%) using PacBio RS II [ 44 ]. Recently, a sequence of C. sporogenes NCIMB 10696 T , which originated from the same strain (McClung 2004 T ) as C. sporogenes DSM 795 T , has been determined using 454, Illumina, and Sanger technologies (CP009225) (4,141,984 bp; average GC content, 28.00%).…”